SMTL ID : 7cxm.1

Architecture of a SARS-CoV-2 mini replication and transcription complex

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-1-2-mer

Ligands

1 x U- A- A- A- A- U: RNA (5'-R(P*UP*UP*UP*UP*UP*U)-3')(Non-covalent)

U-A-A-A-A-U.1: 20 residues within 4Å: Chain H: F.145, P.175, N.179, Y.180, H.230, C.309, S.310, H.311, I.334, N.361, A.362, M.378, A.407, P.408, T.410, V.484, S.485, S.486, T.532, D.534 Protein-ligand interaction information (PLIP) not available

8 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.295, C.301, C.306, C.310 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.295, A:C.301, A:C.306, A:C.310 ZN.3: 5 residues within 4Å: Chain A: C.487, F.571, H.642, C.645, C.646 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.487, A:H.642, A:C.645, A:C.646 ZN.4: 6 residues within 4Å: Chain G: C.5, L.7, C.8, C.26, C.29, G.99 2 PLIP interactions: 2 interactions with chain G Metal complexes: G:C.26, G:C.29 ZN.5: 5 residues within 4Å: Chain G: C.50, A.52, C.55, C.72, H.75 4 PLIP interactions: 4 interactions with chain G Metal complexes: G:C.50, G:C.55, G:C.72, G:H.75 ZN.6: 5 residues within 4Å: Chain G: C.16, C.19, H.33, H.39, F.106 5 PLIP interactions: 5 interactions with chain G Metal complexes: G:C.16, G:C.19, G:H.33, G:H.33, G:H.39 ZN.7: 5 residues within 4Å: Chain H: C.5, C.8, C.26, C.29, V.98 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.5, H:C.8, H:C.26, H:C.29 ZN.8: 5 residues within 4Å: Chain H: C.50, C.55, C.72, S.74, H.75 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.50, H:C.55, H:C.72, H:H.75 ZN.9: 4 residues within 4Å: Chain H: C.16, C.19, H.33, H.39 4 PLIP interactions: 4 interactions with chain H Metal complexes: H:C.16, H:C.19, H:H.33, H:H.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yan, L. et al., Architecture of a SARS-CoV-2 mini replication and transcription complex. Nat Commun (2020)

Release Date

2020-11-04

Peptides

RNA-directed RNA polymerase: A
Non-structural protein 8: BD
Non-structural protein 7: C
Helicase: GH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

D
D

C
C

G
F

H
E

RNA-directed RNA polymerase

Non-structural protein 8

Non-structural protein 7

Helicase

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